Package: TDAstats 0.4.1

TDAstats: Pipeline for Topological Data Analysis

A comprehensive toolset for any useR conducting topological data analysis, specifically via the calculation of persistent homology in a Vietoris-Rips complex. The tools this package currently provides can be conveniently split into three main sections: (1) calculating persistent homology; (2) conducting statistical inference on persistent homology calculations; (3) visualizing persistent homology and statistical inference. The published form of TDAstats can be found in Wadhwa et al. (2018) <doi:10.21105/joss.00860>. For a general background on computing persistent homology for topological data analysis, see Otter et al. (2017) <doi:10.1140/epjds/s13688-017-0109-5>. To learn more about how the permutation test is used for nonparametric statistical inference in topological data analysis, read Robinson & Turner (2017) <doi:10.1007/s41468-017-0008-7>. To learn more about how TDAstats calculates persistent homology, you can visit the GitHub repository for Ripser, the software that works behind the scenes at <https://github.com/Ripser/ripser>. This package has been published as Wadhwa et al. (2018) <doi:10.21105/joss.00860>.

Authors:Raoul Wadhwa [aut, cre], Andrew Dhawan [aut], Drew Williamson [aut], Jacob Scott [aut], Jason Cory Brunson [ctb], Shota Ochi [ctb]

TDAstats_0.4.1.tar.gz
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TDAstats.pdf |TDAstats.html
TDAstats/json (API)

# Install 'TDAstats' in R:
install.packages('TDAstats', repos = c('https://rrrlw.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/rrrlw/tdastats/issues

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • circle2d - 2-dimensional point cloud of a unit circle
  • sphere3d - 3-dimensional point cloud of a unit sphere
  • unif2d - 2-dimensional point cloud of a unit square
  • unif3d - 3-dimensional point cloud of a unit cube

On CRAN:

data-scienceggplot2homologyhomology-calculationshomology-computationjosspersistent-homologypipelineripsertdatopological-data-analysistopologytopology-visualizationvisualization

8.26 score 37 stars 4 packages 46 scripts 336 downloads 2 mentions 6 exports 29 dependencies

Last updated 3 years agofrom:777d70f6fc. Checks:OK: 1 NOTE: 8. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 06 2024
R-4.5-win-x86_64NOTENov 06 2024
R-4.5-linux-x86_64NOTENov 06 2024
R-4.4-win-x86_64NOTENov 06 2024
R-4.4-mac-x86_64NOTENov 06 2024
R-4.4-mac-aarch64NOTENov 06 2024
R-4.3-win-x86_64NOTENov 06 2024
R-4.3-mac-x86_64NOTENov 06 2024
R-4.3-mac-aarch64NOTENov 06 2024

Exports:calculate_homologyid_significantpermutation_testphom.distplot_barcodeplot_persist

Dependencies:clicolorspacefansifarverggplot2gluegtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerRcpprlangscalestibbleutf8vctrsviridisLitewithr

Data Input for TDAstats

Rendered frominputformat.Rmdusingknitr::rmarkdownon Nov 06 2024.

Last update: 2018-08-08
Started: 2018-08-08

Hypothesis testing with TDAstats

Rendered frominference.Rmdusingknitr::rmarkdownon Nov 06 2024.

Last update: 2018-07-27
Started: 2018-07-26

Introduction to persistent homology with TDAstats

Rendered fromintro.Rmdusingknitr::rmarkdownon Nov 06 2024.

Last update: 2019-12-12
Started: 2018-07-26